I am under the impression that I need to go into my game files and run the reproccer once installed. I am under the impression that I need to find the .jar file and run it so that SkyRe works with other weapon and armor mods. The problem is that the .jar files have a WinRar icon, and just open in WinRar when I click them. Any advice?

Ensure you've got the latest Java Runtime Environment installed. Also you could check https://www.youtube.com/watch?v=tUmfF5_S-P8